LinkedIn·Tuesday, 18 August 2026·8d ago

Good job! All three AI-designed nanobodies beat our lab-validated benchmark! (🎥 Designing nanobody Ep10 ) This episode closes the design…

Philippe Herman

EVOBodies® for your AI generated and wet-lab validated VHHs in 12 weeks | Minibinders | AMR | CEO IMMUNOCHEM

Good job! All three AI-designed nanobodies beat our lab-validated benchmark! (🎥 Designing nanobody Ep10 ) This episode closes the design campaign I opened nine posts ago. Here's the final comparison : 🚩 On one side, the 8SKJ crystal structure, the real, experimentally resolved binding mode we started from. 🚩 On the other, our three finalists, the survivors of 14,000 designs, 362 candidates, 123 shortlisted, and 100 nanoseconds of molecular dynamics each! Results : ✅ All three maintain a truly deep, buried interface with the V5 epitope. ✅ All three lock the peptide into a stable conformation, closely mirroring the native binding mode we used as our starting reference. ✅ And all three outperform nbV5, our positive control, the real nanobody with a measured Kd of 29 nanomolar that set the bar for this entire campaign. That's the part I want to sit with for a second. We did not simply generate #nanobody that works, we generated nanobodies that beats what already worked in the lab, purely computationally, before a single wet lab experiment. ♾️ This is the process I walked you through, step by step, over the past nine posts: ▶️ the target and its epitope ▶️a real benchmark ▶️a curated framework bank ▶️BoltzGen's diffusion ▶️developability built into generation itself ▶️REC8 scoring ▶️multi-seed convergence ▶️and physics as the final judge ♾️ None of these steps alone is the breakthrough but the entire pipeline is 👍 . Thank you for following this series! ▶️ What did you think about it? Should I make others? Phil. PS: I've launched EVOBody™, a unique platform allowing biotech leaders to develop antibody projects from concept to generation with minimal risk in only 12 weeks, for maximum impact. Apply for access to our program by clicking on 'Schedule a Meeting' under my profile.